Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A6 F9 I0 R1 109 135.6 2723430 97.5% 2655344 229.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,151,689 G→T 30.0% intergenic (+43/+22) yegJ → / ← yegK uncharacterized protein/ser/thr phosphatase‑related protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,151,6890GT30.0% 24.8 / 3.1 33intergenic (+43/+22)yegJ/yegKuncharacterized protein/ser/thr phosphatase‑related protein
Reads supporting (aligned to +/- strand):  ref base G (13/9);  new base T (4/6);  total (17/16)
Fisher's exact test for biased strand distribution p-value = 4.50e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01

TAATCAGCAATGACCCTGGTATTGTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAG‑ATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAGTCGCTGGATAC  >  NC_000913/2151456‑2151913
                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                   
tAATCAGCAATGACCCTGGTATTGTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAG‑ATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCATTTATTCTTTTTTTGTTACCTTTCCAAAAGAAGAAAACGACGAGCGAAGAGCAAAAATAGTTTCCTTATCAAACGTTATATTTTTTTTTTAAAATAGCGG‑TGT‑AA‑TTTTTGttttt                                                                                                                                                                                                                                >  1:699365/1‑238 (MQ=255)
                                           gcAGGGGGGGAAAAAAAAAAAAAAAGAATATTTAAGGTTGGATGTATACGCGGGGGGAAAAAATTTCGGGGGTTTATACCATTGATCTTTTTTTGGTCCCCTATCAAAAAGAAAACGCCGAAGAGAAAAGAGAAAAATTAGTGCGTTAATCAGCCTTTTTTTTTTTTTTTAAAACGGGGGG‑TTG‑AA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGcc                                                                                                                                                                                     <  2:468798/237‑1 (MQ=255)
                                                aGTAGAAAAACAAAAAAGAAT‑ATAGTTAAGACTGGTGTTATAGGCGGGGGAATAAATTTCGCGGGTGTTATACATTTAATCCTTTATGGCCCTCCAACCAAAAAGAAAAAGCGGATGAGCTAAGAAAAAAATTAGTTCGATAGCCAGCGTTTATATTTTTTGTTTAACCGGGGGG‑TTG‑AA‑TTGTTTTCTC‑AAC‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGtt                                                                                                                                                                               <  2:972473/238‑1 (MQ=255)
                                                       aaTAAAAAAAAAAG‑ATATTTCAGCCTGGATGTATCCGCGGGGGAAAAAAATTTACGGCGGTTATCCCATTGTTCTTTTATTGCTCACCTACCAAAAAGAAGAAGCCAACGAGAAAAGAAAAAAATATGTTCGTTAATCACCCTTTATATTTATTGTTTAACCTGGGGG‑TTA‑AA‑TTTTTGTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTatcatc                                                                                                                                                                       <  1:443884/239‑1 (MQ=255)
                                                                       tacctcatgcTGGAGTTACACGCGCTGGAATAAAATTTACGGGCTTTACACTTTGGACCCTTTATGGCACACCTAGCAAAAAAAAGGAGGCGACAGGTCAAGAAAAAAAAGTCTGCGCTACACACCCGTTTTATTTATTGTTTAGCCTGGGGG‑TAA‑AT‑TTGTT‑TCCT‑CAACCCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGtt                                                                                                                                                       <  2:115863/230‑1 (MQ=255)
                                                                                                                   gTTATACCATTGATCCTTTATTGGTCCCCTACCAAAAAGAAAAAGCCGAGGAGCTAAGAGAAAAATTAGTCCGCTAACCAGCCGTTATATTTATTGTTTAAACGGGCGG‑TTG‑AA‑TTGTTGTCTT‑AAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTatcatcat                                                                                                                                                                     <  1:211309/182‑1 (MQ=255)
                                                                                                                          ctttGATCTTTTATTGGCCCCCTACCAAAAAGAAAAAGCCGAAGAGCTAAGAGAAAAATTAGTTCGTTAATCAGCTTTTATTTTTTTTTTTAAAACGGGGGT‑TTA‑AT‑TTTTTTTCTC‑AAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAg                                                                                                    <  1:544188/237‑1 (MQ=255)
                                                                                                                             tGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑TA‑TTTTTTTTTT‑CCA‑CCGCCATGAGAAAATCACTCTTCCCCCAGCGCCAGTGCCAACGTTTTATCCTCCT‑CCGTACCCTc                                                                                                                                                          >  2:211309/1‑182 (MQ=255)
                                                                                                                              gATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTCTT‑CCA‑CCGCCATGAGGAAATCAATCTGCCCCCAGCGCCAGTGCCAACCGTTTATCATTAT‑CCGTTAGCCCGTGTAACGCCGGGCTGGACCAAAACTGCTTTTACAATTTCGGTTATAAATCGAgttgt                                                                                                >  1:430787/1‑239 (MQ=255)
                                                                                                                                    ttATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGTGCCAACGGTTTTTCATCAT‑CCGTAAGCTCGTTTACCGCCGGGCTGGACAAAAAATGCTTTAACAATTCAGGTAATAAAACGAGTTGTTCCTGc                                                                                          >  1:567766/1‑239 (MQ=255)
                                                                                                                                     tATTGCTCCCCTACCAAAAAAAAAAAGCCGACGAGCTAAGAGCAAAATTATTCCGTAAATCAGCTGTTATATTTATTTTTAAAACTGGGGG‑TTA‑AA‑TTGTTGTCTT‑CAC‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCg                                                                                         <  1:914921/239‑1 (MQ=255)
                                                                                                                                          gTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTTTTGTCTT‑CAA‑CCCCCATGAGAAACTCACTCTGCCCCCAACGCCCGTGCCCACGGTTTTTCATCAT‑CCGTACGCTCGTTTACCGCCCGGCTGGACAAAAACATCTTTAACAATTTAGGGAATAAATCGAGTTGTTCCTGCGTtgct                                                                                    >  2:268980/1‑239 (MQ=255)
                                                                                                                                           tCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑TA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCCCAGCGCCAGTGCCCACGGTTTATCATCAT‑CCGTACACTCGTTTTCCGCCCGGCCGGACAAAAACTGCTTTAACCAATCCGGGAATAAATCGAGTTGTTTCttggtttct                                                                                    >  2:977994/1‑230 (MQ=255)
                                                                                                                                           tCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTTTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGGTGTTTCTGCGTtgct                                                                                    >  1:897092/1‑238 (MQ=255)
                                                                                                                                             aCCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCCCGTTTACCCCCCGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAAACGAGTTTTTTCTGCggttcttc                                                                                  >  1:1091478/1‑231 (MQ=255)
                                                                                                                                                                          aaGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTGTT‑CAA‑CCCCCATTAGAAAATCACTCTGCCCCCAGCGCCAGTGCCAACGGTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGGTGGGCAAAAACTGCTTTCACAATTTCGGCAATAAATCGAGTTTTTCCTGCGGTTCCGCCGCCAGTCCCATGGAAAACGGGGGaaagca                                                    >  2:749916/1‑237 (MQ=255)
                                                                                                                                                                                aaaaTTTGTTCCATAAACAGCCCTTATTATTTTTTTTTAAACCGGGGG‑TTT‑AATTTTTTGTTTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGca                                               <  1:295498/239‑1 (MQ=255)
                                                                                                                                                                                aaaaTTGGTTCCTTAATAACCCTTTATTTTTTTTGTTAAACCTGG‑GG‑TTT‑AA‑ATTTTTTCCT‑CAACCCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGcac                                              <  1:500990/239‑1 (MQ=255)
                                                                                                                                                                                     tAGTTCGTTATACACCCTTTTTTTTTTTTATTAAACCTGG‑GG‑TTT‑AA‑TTTTTTTTTTCCAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATgag                                         <  1:99038/239‑1 (MQ=255)
                                                                                                                                                                                       tgtccatAATCAGCCGTTATTTTTATTGTTAAAACTGGGGG‑TTG‑AA‑TTTTTGTCTT‑AAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATgagga                                       <  1:307402/233‑1 (MQ=255)
                                                                                                                                                                                            cTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑ATG‑TA‑TTGTTTTTTT‑TCA‑ACGCCATGAGAAAATAACTCTGCCCACAACCCCCATGCCCACGTTTTTTTATCATCCCGTAC‑CTCTGTTACCGCCGGGGTGGACAAAAAATTCTTTTACAATTCATGGAATAAATAGCGGTGTTTCTGCGGTTCTTCCGCCAGTCCATTGTAAAACGGGGAAAAAAAAGGCACATGAGGGGAAtt                                  >  2:1231099/1‑239 (MQ=255)
                                                                                                                                                                                               acaaGCCTTTTTATTTATTGTTAAACCGGGCGG‑TTG‑AT‑TTTTTTTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATc                               <  1:872061/236‑1 (MQ=255)
                                                                                                                                                                                                    ccGTTATATTTATTGTTTAAACTGGCGG‑TTG‑GA‑TTGATGTCTT‑CCG‑ACGCCATCAGAAAATCACTCTTCCCCCAACGCCAGGGCCAACCTTTTATCATCAT‑CCGAAAGCTCGTTTTTCCCCGGGCTGCACCAAAAATGCTTTAACAATTCCAGCAATAATTCATGTTGTTCCGGCGTTGCTGCCGCCAGTCCATTGAAAAAAGGGATAAACAAATGCACATGAGGAGAAGTATCCAGCa                          >  2:636701/1‑239 (MQ=255)
                                                                                                                                                                                                               attGTTTAAACTGGCGG‑TTG‑AA‑TTGTTTTCTT‑CAA‑CCGCCTTGAGAAAATCACTCTGACCACAGCGCCAGTGCCAACGTGTTTTCATCAT‑CCGTTCGCTCGTTTAACGCCGCGCTGGACAAAAAATTCTTTTACAATTCAGGTAATAAATTGAGTTGTTTCTGCGTTGCTGCCGCCAATCCATTGGAAAAAGGGGAGAAAAAAGGGACAATAGGAGAATTATCCAGGATATTTAACGcc               >  1:1331392/1‑239 (MQ=255)
                                                                                                                                                                                                                attattAAACCGGCGGTTTG‑AC‑TGTTTGTCAC‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGcc               <  1:1231099/235‑1 (MQ=255)
                                                                                                                                                                                                                 tGTTTAAACTGGCGG‑TTT‑AA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGGTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAAAGGGGGAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAg             >  1:753409/1‑239 (MQ=255)
                                                                                                                                                                                                                 tGTTTAAACTGGCGG‑TTT‑AA‑TTGTTGTCTT‑CAA‑ACCCCATGAGAAACTCACTCTGCCCACAGCGCCCGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCGGGACAAAAACTGCTTTTACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTTCTGCCGCCCGTCCCTTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAg             >  1:760198/1‑239 (MQ=255)
                                                                                                                                                                                                                 tGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTTTT‑CAA‑CCGCCATGAGAAAATCACTCTGCCCCCAACGCCAGTGCCCACGTTTTATCATCAT‑CCGTACGCCCGTTTACCGCCGGGCTGGACAAAAAATGCTTTTACAATTCAGGTAATAAACTGAGTTGTTCCTGCGGTGCTGCCGCCCGTCCATTTGAAAACGGGGGAAAGAAAAGCACAAGAGGAGGATTATCCAGCCTATTTAACGcccg             >  1:66511/1‑237 (MQ=255)
                                                                                                                                                                                                                 tGTTTAAACTGGCGG‑CTG‑AA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAACTCACCCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCCCGTTTTCCGCCGGGCTGGACAAAAACTTCTTTAACAATTCCGGTAATAAATCGAGTTGTTCCTGCGGTTCTGCCGCCAGTCCATTGAAAAACGGGGGAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTTACGCCaa             >  1:884981/1‑238 (MQ=255)
                                                                                                                                                                                                                 tGTTAAAACGGCCGT‑TTA‑AT‑TTTTTGCCTA‑CAC‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAg             <  1:1095048/239‑1 (MQ=255)
                                                                                                                                                                                                                   tttAACCGGGGGG‑TTA‑AA‑TTGTTGTCTT‑AAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAg                                                                                                    <  1:1315240/150‑1 (MQ=255)
                                                                                                                                                                                                                             ggg‑TTGAAA‑TTGTTTTTTC‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAGTCGCTGGATa   <  1:1012115/237‑1 (MQ=255)
                                                                                                                                                                                                                             cGG‑TTG‑AA‑TTTTTTTCTT‑TAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGGTTTATTATCAT‑CCGTACGCCCGTTTTCCCCCGGGCTGGACAAAAACTGCTTTTACAATTCAGGGAATAAATCGAGTTGTTTCTGc                                                                                          >  2:1315240/1‑150 (MQ=255)
                                                                                                                                                                                                                                ggtttaattttttgtCTT‑CAC‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAGTCGCTGGATAc  <  1:268980/227‑1 (MQ=255)
                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                   
TAATCAGCAATGACCCTGGTATTGTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAG‑ATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTG‑AA‑TTGTTGTCTT‑CAA‑CCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCAT‑CCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGCCAGTCCATTGAAAAACGGGGTAAAGAAAGGCACATGAGGAGAATTATCCAGCATATTTAACGCCAGTCGCTGGATAC  >  NC_000913/2151456‑2151913

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A